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ERV Nomenclature

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Robert J. Gifford edited this page Oct 23, 2024 · 3 revisions

We have applied a systematic approach to naming lentivirus ERV lineages and loci.

Each element was assigned a unique identifier (ID) constructed from a defined set of components.

ERV Nomenclature

The first component is the classifier ‘ERV’ (endogenous retrovirus).

The second component is a composite of two distinct subcomponents separated by a period:

(i) the name of lentivirus the ERV derives from;
(ii) a numeric ID that identifies a unique insertion locus. Orthologous copies in different species are given the same number.

The third component of the ID defines the set of host species in which the ortholog occurs.

Lentivirus GLUE

Overview & Installation

  1. Home
  2. Background
  3. Requirements
  4. Docker Installation
  5. Native Installation
  6. Usage Overview

Lentivirus Core Project

  1. Overview
  2. Schema Extensions
  3. Core Project Data

SRLV Extension

  1. Background
  2. Project Data
  3. Genotyping Tools

EIAV Extension

  1. Background
  2. Project Data
  3. Genotyping Tools

Primate Extension

  1. Background
  2. Project Data

FIV Extension

  1. Background
  2. Project Data

Bovine Extension

  1. Background

ERV Extension

  1. Background
  2. Schema Extensions
  3. ERV Project Data

The GLUE Framework

User Guide

  1. Project Data Model
  2. Schema Extensions
  3. Modules
  4. Alignments
  5. Variations
  6. Scripting Layer
  7. Freemarker Templates

Command Reference

  1. Command Mode Reference
  2. Mode Non-Specific Commands
  3. Module Type Reference
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